Read the Docs build information
Build id: 670180
Project: institute-for-disease-modeling-synthpops-test
Version: latest
Commit: d17d2bcf2f041e204a51a0c5a1c9bdad3022d7f1
Date: 2021-07-05T22:18:14.043521Z
State: finished
Success: True


[rtd-command-info] start-time: 2021-07-05T22:18:15.587998Z, end-time: 2021-07-05T22:18:22.905761Z, duration: 7, exit-code: 0
git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/synthpops.git .
Cloning into '.'...
Warning: Permanently added 'github.com,192.30.255.112' (RSA) to the list of known hosts.

[rtd-command-info] start-time: 2021-07-05T22:18:23.072605Z, end-time: 2021-07-05T22:18:23.203195Z, duration: 0, exit-code: 0
git checkout --force origin/master
Note: checking out 'origin/master'.

You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by performing another checkout.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:

  git checkout -b <new-branch-name>

HEAD is now at d17d2bc Merge pull request #521 from amath-idm/add-draft-wip

[rtd-command-info] start-time: 2021-07-05T22:18:23.333427Z, end-time: 2021-07-05T22:18:23.405868Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2021-07-05T22:18:23.519669Z, end-time: 2021-07-05T22:18:23.593083Z, duration: 0, exit-code: 0
git rev-parse HEAD
d17d2bcf2f041e204a51a0c5a1c9bdad3022d7f1

[rtd-command-info] start-time: 2021-07-05T22:18:24.765021Z, end-time: 2021-07-05T22:18:28.870448Z, duration: 4, exit-code: 0
python3.7 -mvirtualenv --system-site-packages 
Using base prefix '/home/docs/.pyenv/versions/3.7.9'
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin/python3.7
Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2021-07-05T22:18:28.990043Z, end-time: 2021-07-05T22:18:30.142565Z, duration: 1, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools
Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages (21.1.3)
Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages (57.1.0)

[rtd-command-info] start-time: 2021-07-05T22:18:30.253679Z, end-time: 2021-07-05T22:18:39.394426Z, duration: 9, exit-code: 0
python -m pip install --upgrade --no-cache-dir -I mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<2.2
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Building wheels for collected packages: mock, future
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Successfully built mock future
Installing collected packages: urllib3, sphinxcontrib-serializinghtml, pytz, pyparsing, MarkupSafe, idna, chardet, certifi, sphinxcontrib-websupport, snowballstemmer, six, setuptools, requests, Pygments, packaging, Jinja2, imagesize, future, docutils, babel, alabaster, sphinx, commonmark, sphinx-rtd-theme, recommonmark, readthedocs-sphinx-ext, pillow, mock
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
matplotlib 3.3.2 requires pillow>=6.2.0, but you have pillow 5.4.1 which is incompatible.
Successfully installed Jinja2-3.0.1 MarkupSafe-2.0.1 Pygments-2.9.0 alabaster-0.7.12 babel-2.9.1 certifi-2021.5.30 chardet-4.0.0 commonmark-0.8.1 docutils-0.17.1 future-0.18.2 idna-2.10 imagesize-1.2.0 mock-1.0.1 packaging-21.0 pillow-5.4.1 pyparsing-2.4.7 pytz-2021.1 readthedocs-sphinx-ext-2.1.4 recommonmark-0.5.0 requests-2.25.1 setuptools-57.1.0 six-1.16.0 snowballstemmer-2.1.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.5 sphinxcontrib-websupport-1.2.4 urllib3-1.26.6

[rtd-command-info] start-time: 2021-07-05T22:18:39.500118Z, end-time: 2021-07-05T22:18:45.394187Z, duration: 5, exit-code: 0
python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt
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Successfully installed attrs-21.2.0 importlib-metadata-4.6.1 iniconfig-1.1.1 llvmlite-0.31.0 numba-0.48.0 pandoc-1.1.0 plantweb-1.2.1 pluggy-0.13.1 plumbum-1.7.0 ply-3.11 pockets-0.9.1 py-1.10.0 pypandoc-1.6.3 pytest-6.2.4 sphinxcontrib-napoleon-0.7 toml-0.10.2 typing-extensions-3.10.0.0 zipp-3.5.0

[rtd-command-info] start-time: 2021-07-05T22:18:45.526285Z, end-time: 2021-07-05T22:19:14.397814Z, duration: 28, exit-code: 0
python ./setup.py install --force
running install
running bdist_egg
running egg_info
creating synthpops.egg-info
writing synthpops.egg-info/PKG-INFO
writing dependency_links to synthpops.egg-info/dependency_links.txt
writing requirements to synthpops.egg-info/requires.txt
writing top-level names to synthpops.egg-info/top_level.txt
writing manifest file 'synthpops.egg-info/SOURCES.txt'
reading manifest file 'synthpops.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
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warning: manifest_maker: MANIFEST.in, line 4: unknown action 'global-prune'

warning: manifest_maker: MANIFEST.in, line 5: unknown action 'global-prune'

adding license file 'LICENSE'
writing manifest file 'synthpops.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
creating build
creating build/lib
creating build/lib/synthpops
copying synthpops/data.py -> build/lib/synthpops
copying synthpops/sampling.py -> build/lib/synthpops
copying synthpops/config.py -> build/lib/synthpops
copying synthpops/contact_networks.py -> build/lib/synthpops
copying synthpops/schools.py -> build/lib/synthpops
copying synthpops/households.py -> build/lib/synthpops
copying synthpops/pop.py -> build/lib/synthpops
copying synthpops/version.py -> build/lib/synthpops
copying synthpops/workplaces.py -> build/lib/synthpops
copying synthpops/data_distributions.py -> build/lib/synthpops
copying synthpops/plotting.py -> build/lib/synthpops
copying synthpops/base.py -> build/lib/synthpops
copying synthpops/defaults.py -> build/lib/synthpops
copying synthpops/ltcfs.py -> build/lib/synthpops
copying synthpops/__init__.py -> build/lib/synthpops
creating build/lib/synthpops/people
copying synthpops/people/household_size_data.py -> build/lib/synthpops/people
copying synthpops/people/utils.py -> build/lib/synthpops/people
copying synthpops/people/makepop.py -> build/lib/synthpops/people
copying synthpops/people/state_age_data.py -> build/lib/synthpops/people
copying synthpops/people/people.py -> build/lib/synthpops/people
copying synthpops/people/loaders.py -> build/lib/synthpops/people
copying synthpops/people/country_age_data.py -> build/lib/synthpops/people
copying synthpops/people/__init__.py -> build/lib/synthpops/people
creating build/lib/synthpops/data
copying synthpops/data/MUestimates_all_locations.obj -> build/lib/synthpops/data
copying synthpops/data/MUestimates_home.obj -> build/lib/synthpops/data
copying synthpops/data/MUestimates_other_locations.obj -> build/lib/synthpops/data
copying synthpops/data/MUestimates_school.obj -> build/lib/synthpops/data
copying synthpops/data/MUestimates_work.obj -> build/lib/synthpops/data
copying synthpops/data/Malawi.json -> build/lib/synthpops/data
copying synthpops/data/Nepal.json -> build/lib/synthpops/data
copying synthpops/data/Senegal-Dakar-Dakar.json -> build/lib/synthpops/data
copying synthpops/data/Senegal-Dakar.json -> build/lib/synthpops/data
copying synthpops/data/Senegal.json -> build/lib/synthpops/data
copying synthpops/data/Zimbabwe.json -> build/lib/synthpops/data
copying synthpops/data/usa-Oregon-portland_metro.json -> build/lib/synthpops/data
copying synthpops/data/usa-Oregon.json -> build/lib/synthpops/data
copying synthpops/data/usa-Washington-Franklin_County.json -> build/lib/synthpops/data
copying synthpops/data/usa-Washington-Island_County.json -> build/lib/synthpops/data
copying synthpops/data/usa-Washington-Spokane_County.json -> build/lib/synthpops/data
copying synthpops/data/usa-Washington-seattle_metro.json -> build/lib/synthpops/data
copying synthpops/data/usa-Washington.json -> build/lib/synthpops/data
copying synthpops/data/usa.json -> build/lib/synthpops/data
creating build/bdist.linux-x86_64
creating build/bdist.linux-x86_64/egg
creating build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/data.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/sampling.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/config.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/contact_networks.py -> build/bdist.linux-x86_64/egg/synthpops
creating build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/Nepal.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Washington-seattle_metro.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/MUestimates_home.obj -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Oregon.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/Senegal.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Oregon-portland_metro.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Washington.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/MUestimates_all_locations.obj -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/MUestimates_school.obj -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/Senegal-Dakar.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/Zimbabwe.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/MUestimates_work.obj -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/Malawi.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/MUestimates_other_locations.obj -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Washington-Franklin_County.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/Senegal-Dakar-Dakar.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Washington-Spokane_County.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/data/usa-Washington-Island_County.json -> build/bdist.linux-x86_64/egg/synthpops/data
copying build/lib/synthpops/schools.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/households.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/pop.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/version.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/workplaces.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/data_distributions.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/plotting.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/base.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/defaults.py -> build/bdist.linux-x86_64/egg/synthpops
creating build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/household_size_data.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/utils.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/makepop.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/state_age_data.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/people.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/loaders.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/country_age_data.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/people/__init__.py -> build/bdist.linux-x86_64/egg/synthpops/people
copying build/lib/synthpops/ltcfs.py -> build/bdist.linux-x86_64/egg/synthpops
copying build/lib/synthpops/__init__.py -> build/bdist.linux-x86_64/egg/synthpops
byte-compiling build/bdist.linux-x86_64/egg/synthpops/data.py to data.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/sampling.py to sampling.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/config.py to config.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/contact_networks.py to contact_networks.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/schools.py to schools.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/households.py to households.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/pop.py to pop.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/version.py to version.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/workplaces.py to workplaces.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/data_distributions.py to data_distributions.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/plotting.py to plotting.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/base.py to base.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/defaults.py to defaults.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/household_size_data.py to household_size_data.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/utils.py to utils.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/makepop.py to makepop.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/state_age_data.py to state_age_data.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/people.py to people.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/loaders.py to loaders.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/country_age_data.py to country_age_data.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/people/__init__.py to __init__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/ltcfs.py to ltcfs.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/synthpops/__init__.py to __init__.cpython-37.pyc
creating build/bdist.linux-x86_64/egg/EGG-INFO
copying synthpops.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
copying synthpops.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying synthpops.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying synthpops.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying synthpops.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
zip_safe flag not set; analyzing archive contents...
synthpops.__pycache__.config.cpython-37: module references __file__
synthpops.__pycache__.defaults.cpython-37: module references __file__
creating dist
creating 'dist/synthpops-1.10.4-py3.7.egg' and adding 'build/bdist.linux-x86_64/egg' to it
removing 'build/bdist.linux-x86_64/egg' (and everything under it)
Processing synthpops-1.10.4-py3.7.egg
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/synthpops-1.10.4-py3.7.egg
Extracting synthpops-1.10.4-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding synthpops 1.10.4 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/synthpops-1.10.4-py3.7.egg
Processing dependencies for synthpops==1.10.4
Searching for jsbeautifier
Reading https://pypi.org/simple/jsbeautifier/
Downloading https://files.pythonhosted.org/packages/56/3a/4f3bdfa7e6c472d347a04f267faa55d2ff1a5ab993b63f0c2ead1cdfa512/jsbeautifier-1.14.0.tar.gz#sha256=84fdb008d8af89619269a6aca702288b48f837a99427a0f529aa57ecfb36ee3c
Best match: jsbeautifier 1.14.0
Processing jsbeautifier-1.14.0.tar.gz
Writing /tmp/easy_install-7_2rwjzz/jsbeautifier-1.14.0/setup.cfg
Running jsbeautifier-1.14.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-7_2rwjzz/jsbeautifier-1.14.0/egg-dist-tmp-800spitk
package init file 'jsbeautifier/tests/generated/__init__.py' not found (or not a regular file)
warning: no files found matching 'js-beautify'
zip_safe flag not set; analyzing archive contents...
jsbeautifier.unpackers.__pycache__.__init__.cpython-37: module references __path__
jsbeautifier.unpackers.tests.__pycache__.testmyobfuscate.cpython-37: module references __path__
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jsbeautifier-1.14.0-py3.7.egg
Extracting jsbeautifier-1.14.0-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding jsbeautifier 1.14.0 to easy-install.pth file
Installing js-beautify script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jsbeautifier-1.14.0-py3.7.egg
Searching for jsonobject
Reading https://pypi.org/simple/jsonobject/
Downloading https://files.pythonhosted.org/packages/62/57/85f98bd8e7c5a46d8a3780cc0af92cbdb67066ac68112236b53b29f0eaaf/jsonobject-0.9.10.tar.gz#sha256=deecaafe0a361b87e2f136b9174063e9969ac036ee7066efd7911f1d608e6e0b
Best match: jsonobject 0.9.10
Processing jsonobject-0.9.10.tar.gz
Writing /tmp/easy_install-aahqjo4l/jsonobject-0.9.10/setup.cfg
Running jsonobject-0.9.10/setup.py -q bdist_egg --dist-dir /tmp/easy_install-aahqjo4l/jsonobject-0.9.10/egg-dist-tmp-wweygkx1
Warning: 'classifiers' should be a list, got type 'tuple'
zip_safe flag not set; analyzing archive contents...
jsonobject.__pycache__.api.cpython-37: module references __file__
jsonobject.__pycache__.base.cpython-37: module references __file__
jsonobject.__pycache__.base_properties.cpython-37: module references __file__
jsonobject.__pycache__.containers.cpython-37: module references __file__
jsonobject.__pycache__.properties.cpython-37: module references __file__
jsonobject.__pycache__.utils.cpython-37: module references __file__
You are running without Cython installed. It is highly recommended to run
  pip install cython>=0.29.21,<1.0.0
before you continue
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jsonobject-0.9.10-py3.7-linux-x86_64.egg
Extracting jsonobject-0.9.10-py3.7-linux-x86_64.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding jsonobject 0.9.10 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jsonobject-0.9.10-py3.7-linux-x86_64.egg
Searching for pydot
Reading https://pypi.org/simple/pydot/
Downloading https://files.pythonhosted.org/packages/ea/76/75b1bb82e9bad3e3d656556eaa353d8cd17c4254393b08ec9786ac8ed273/pydot-1.4.2-py2.py3-none-any.whl#sha256=66c98190c65b8d2e2382a441b4c0edfdb4f4c025ef9cb9874de478fb0793a451
Best match: pydot 1.4.2
Processing pydot-1.4.2-py2.py3-none-any.whl
Installing pydot-1.4.2-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding pydot 1.4.2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/pydot-1.4.2-py3.7.egg
Searching for graphviz
Reading https://pypi.org/simple/graphviz/
Downloading https://files.pythonhosted.org/packages/86/86/89ba50ba65928001d3161f23bfa03945ed18ea13a1d1d44a772ff1fa4e7a/graphviz-0.16-py2.py3-none-any.whl#sha256=3cad5517c961090dfc679df6402a57de62d97703e2880a1a46147bb0dc1639eb
Best match: graphviz 0.16
Processing graphviz-0.16-py2.py3-none-any.whl
Installing graphviz-0.16-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding graphviz 0.16 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/graphviz-0.16-py3.7.egg
Searching for seaborn
Reading https://pypi.org/simple/seaborn/
Downloading https://files.pythonhosted.org/packages/68/ad/6c2406ae175f59ec616714e408979b674fe27b9587f79d59a528ddfbcd5b/seaborn-0.11.1-py3-none-any.whl#sha256=4e1cce9489449a1c6ff3c567f2113cdb41122f727e27a984950d004a88ef3c5c
Best match: seaborn 0.11.1
Processing seaborn-0.11.1-py3-none-any.whl
Installing seaborn-0.11.1-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding seaborn 0.11.1 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/seaborn-0.11.1-py3.7.egg
Searching for cmasher
Reading https://pypi.org/simple/cmasher/
Downloading https://files.pythonhosted.org/packages/cf/45/03088566289394fe2ff4b3c65ab95063de23f3efea3b2e5fa9651329e0fd/cmasher-1.6.2-py3-none-any.whl#sha256=fe29b19bf4e5eb504d75797f1fe309efded1f6d765373a8df0059d35aecefb61
Best match: cmasher 1.6.2
Processing cmasher-1.6.2-py3-none-any.whl
Installing cmasher-1.6.2-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding cmasher 1.6.2 to easy-install.pth file
Installing cmr script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/cmasher-1.6.2-py3.7.egg
Searching for cmocean
Reading https://pypi.org/simple/cmocean/
Downloading https://files.pythonhosted.org/packages/48/02/d0f19b00b252fd972e3daec05be73aa811091528f21b90442a15d6a96d89/cmocean-2.0-py3-none-any.whl#sha256=1753f004d84d21c89e76106b2f56e2847808951b2373843bece4dcf532e1a91f
Best match: cmocean 2.0
Processing cmocean-2.0-py3-none-any.whl
Installing cmocean-2.0-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding cmocean 2.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/cmocean-2.0-py3.7.egg
Searching for networkx>=2.3
Reading https://pypi.org/simple/networkx/
Downloading https://files.pythonhosted.org/packages/77/6f/38315f532c833c67ffd8b7026f48ad3e959b5919170ec68b5c26f2803504/networkx-2.6rc2-py3-none-any.whl#sha256=1282804e0d4b29ce1683acff2bdd596f7199ba28b5b13e8e209929039204886b
Best match: networkx 2.6rc2
Processing networkx-2.6rc2-py3-none-any.whl
Installing networkx-2.6rc2-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding networkx 2.6rc2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/networkx-2.6rc2-py3.7.egg
Searching for pandas>=1.2.3
Reading https://pypi.org/simple/pandas/
Downloading https://files.pythonhosted.org/packages/99/f7/01cea7f6c963100f045876eb4aa1817069c5c9eca73d2dbfb5d31ff9a39f/pandas-1.3.0-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.whl#sha256=872aa91e0f9ca913046ab639d4181a899f5e592030d954d28c2529b88756a736
Best match: pandas 1.3.0
Processing pandas-1.3.0-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.whl
Installing pandas-1.3.0-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding pandas 1.3.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/pandas-1.3.0-py3.7-linux-x86_64.egg
Searching for sciris>=1.1.1
Reading https://pypi.org/simple/sciris/
Downloading https://files.pythonhosted.org/packages/a5/8d/bf0545ef25a10d52c78f1aa08548eab729ce967fe2f782d6315f5454d5a1/sciris-1.1.1-py3-none-any.whl#sha256=a344f9d185aef89912e029d5f0236ceeb9cf59642325f9516469de1e2da4ba6b
Best match: sciris 1.1.1
Processing sciris-1.1.1-py3-none-any.whl
Installing sciris-1.1.1-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding sciris 1.1.1 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/sciris-1.1.1-py3.7.egg
Searching for editorconfig>=0.12.2
Reading https://pypi.org/simple/editorconfig/
Downloading https://files.pythonhosted.org/packages/4e/04/e8a79c1db0c55ef03d53c05c61d06c4d6d3be37ef84e5400ce36b4a0fbe9/EditorConfig-0.12.3-py3-none-any.whl#sha256=6b0851425aa875b08b16789ee0eeadbd4ab59666e9ebe728e526314c4a2e52c1
Best match: EditorConfig 0.12.3
Processing EditorConfig-0.12.3-py3-none-any.whl
Installing EditorConfig-0.12.3-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding EditorConfig 0.12.3 to easy-install.pth file
Installing editorconfig script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/EditorConfig-0.12.3-py3.7.egg
Searching for e13tools>=0.9.4
Reading https://pypi.org/simple/e13tools/
Downloading https://files.pythonhosted.org/packages/dd/cc/f699b2af6789be195269fa04747b9bddbe5488b30571a0f1e8c2dfcd9267/e13tools-0.9.6-py3-none-any.whl#sha256=2611f98c176f6fdaecba50ffeeb37c639a921331098bb8c0569773b699cea89b
Best match: e13tools 0.9.6
Processing e13tools-0.9.6-py3-none-any.whl
Installing e13tools-0.9.6-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding e13tools 0.9.6 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/e13tools-0.9.6-py3.7.egg
Searching for colorspacious>=1.1.0
Reading https://pypi.org/simple/colorspacious/
Downloading https://files.pythonhosted.org/packages/ab/a1/318b9aeca7b9856410ededa4f52d6f82174d1a41e64bdd70d951e532675a/colorspacious-1.1.2-py2.py3-none-any.whl#sha256=c78befa603cea5dccb332464e7dd29e96469eebf6cd5133029153d1e69e3fd6f
Best match: colorspacious 1.1.2
Processing colorspacious-1.1.2-py2.py3-none-any.whl
Installing colorspacious-1.1.2-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding colorspacious 1.1.2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/colorspacious-1.1.2-py3.7.egg
Searching for xlsxwriter
Reading https://pypi.org/simple/xlsxwriter/
Downloading https://files.pythonhosted.org/packages/93/51/11cb4545e95f1a845a6ca5475eb425272dc32c2f0e3592d80e7abd491374/XlsxWriter-1.4.4-py2.py3-none-any.whl#sha256=15b65f02f7ecdcfb1f22794b1fcfed8e9a49e8b7414646f90347be5cbf464234
Best match: XlsxWriter 1.4.4
Processing XlsxWriter-1.4.4-py2.py3-none-any.whl
Installing XlsxWriter-1.4.4-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding XlsxWriter 1.4.4 to easy-install.pth file
Installing vba_extract.py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/XlsxWriter-1.4.4-py3.7.egg
Searching for xlrd==1.2.0
Reading https://pypi.org/simple/xlrd/
Downloading https://files.pythonhosted.org/packages/b0/16/63576a1a001752e34bf8ea62e367997530dc553b689356b9879339cf45a4/xlrd-1.2.0-py2.py3-none-any.whl#sha256=e551fb498759fa3a5384a94ccd4c3c02eb7c00ea424426e212ac0c57be9dfbde
Best match: xlrd 1.2.0
Processing xlrd-1.2.0-py2.py3-none-any.whl
Installing xlrd-1.2.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding xlrd 1.2.0 to easy-install.pth file
Installing runxlrd.py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/xlrd-1.2.0-py3.7.egg
Searching for psutil
Reading https://pypi.org/simple/psutil/
Downloading https://files.pythonhosted.org/packages/84/da/f7efdcf012b51506938553dbe302aecc22f3f43abd5cffa8320e8e0588d5/psutil-5.8.0-cp37-cp37m-manylinux2010_x86_64.whl#sha256=0dd4465a039d343925cdc29023bb6960ccf4e74a65ad53e768403746a9207023
Best match: psutil 5.8.0
Processing psutil-5.8.0-cp37-cp37m-manylinux2010_x86_64.whl
Installing psutil-5.8.0-cp37-cp37m-manylinux2010_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding psutil 5.8.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/psutil-5.8.0-py3.7-linux-x86_64.egg
Searching for openpyexcel>=2.5
Reading https://pypi.org/simple/openpyexcel/
Downloading https://files.pythonhosted.org/packages/32/e1/722047fae7a46b658d7fa038cf5b952fbbb150c3c8a31012e4fb76eba27d/openpyexcel-2.5.14-py2.py3-none-any.whl#sha256=f18f4efadbc25a26870885f342e14b6cd6862ca1f4b8195b394fc2681ccdbaab
Best match: openpyexcel 2.5.14
Processing openpyexcel-2.5.14-py2.py3-none-any.whl
Installing openpyexcel-2.5.14-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding openpyexcel 2.5.14 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/openpyexcel-2.5.14-py3.7.egg
Searching for multiprocess
Reading https://pypi.org/simple/multiprocess/
Downloading https://files.pythonhosted.org/packages/df/d0/c3011a5bb77f307e68682a5046cce1a2c6591267bf24b5bf3fc4130bb39d/multiprocess-0.70.12.2-py36-none-any.whl#sha256=b3f866f7d9c7acc1a9cb1b6063a29f5cb140ff545b35b71fd4bfdac6f19d75fa
Best match: multiprocess 0.70.12.2
Processing multiprocess-0.70.12.2-py36-none-any.whl
Installing multiprocess-0.70.12.2-py36-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding multiprocess 0.70.12.2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/multiprocess-0.70.12.2-py3.7.egg
Searching for memory-profiler
Reading https://pypi.org/simple/memory-profiler/
Downloading https://files.pythonhosted.org/packages/8f/fd/d92b3295657f8837e0177e7b48b32d6651436f0293af42b76d134c3bb489/memory_profiler-0.58.0.tar.gz#sha256=01385ac0fec944fcf7969814ec4406c6d8a9c66c079d09276723c5a7680f44e5
Best match: memory-profiler 0.58.0
Processing memory_profiler-0.58.0.tar.gz
Writing /tmp/easy_install-iwqzi2e_/memory_profiler-0.58.0/setup.cfg
Running memory_profiler-0.58.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-iwqzi2e_/memory_profiler-0.58.0/egg-dist-tmp-jswj5eue
warning: no files found matching 'mprof.bat'
zip_safe flag not set; analyzing archive contents...
__pycache__.memory_profiler.cpython-37: module MAY be using inspect.getsourcefile
__pycache__.memory_profiler.cpython-37: module MAY be using inspect.stack
__pycache__.memory_profiler.cpython-37: module MAY be using inspect.trace
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/memory_profiler-0.58.0-py3.7.egg
Extracting memory_profiler-0.58.0-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding memory-profiler 0.58.0 to easy-install.pth file
Installing mprof script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/memory_profiler-0.58.0-py3.7.egg
Searching for line-profiler
Reading https://pypi.org/simple/line-profiler/
Downloading https://files.pythonhosted.org/packages/e0/84/922000ff9798c58a95e701d602aa24f98b55bc52039cda4e452c2f879bdb/line_profiler-3.3.0-cp37-cp37m-manylinux2010_x86_64.whl#sha256=3f4ceb262ae1bd64909d773cc0f3b9e7cd58f83eb6ded71bba52d3fd98028311
Best match: line-profiler 3.3.0
Processing line_profiler-3.3.0-cp37-cp37m-manylinux2010_x86_64.whl
Installing line_profiler-3.3.0-cp37-cp37m-manylinux2010_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding line-profiler 3.3.0 to easy-install.pth file
Installing kernprof script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/line_profiler-3.3.0-py3.7-linux-x86_64.egg
Searching for jsonpickle
Reading https://pypi.org/simple/jsonpickle/
Downloading https://files.pythonhosted.org/packages/bb/1a/f2db026d4d682303793559f1c2bb425ba3ec0d6fd7ac63397790443f2461/jsonpickle-2.0.0-py2.py3-none-any.whl#sha256=c1010994c1fbda87a48f8a56698605b598cb0fc6bb7e7927559fc1100e69aeac
Best match: jsonpickle 2.0.0
Processing jsonpickle-2.0.0-py2.py3-none-any.whl
Installing jsonpickle-2.0.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding jsonpickle 2.0.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jsonpickle-2.0.0-py3.7.egg
Searching for jellyfish
Reading https://pypi.org/simple/jellyfish/
Downloading https://files.pythonhosted.org/packages/30/a6/4d039bc827a102f62ce7a7910713e38fdfd7c7a40aa39c72fb14938a1473/jellyfish-0.8.2-cp37-cp37m-manylinux2014_x86_64.whl#sha256=4213dda17b75e09b4a5bac48b7dd2602cf54304af49fd6236d3539f49f614e8a
Best match: jellyfish 0.8.2
Processing jellyfish-0.8.2-cp37-cp37m-manylinux2014_x86_64.whl
Installing jellyfish-0.8.2-cp37-cp37m-manylinux2014_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding jellyfish 0.8.2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jellyfish-0.8.2-py3.7-linux-x86_64.egg
Searching for gitpython
Reading https://pypi.org/simple/gitpython/
Downloading https://files.pythonhosted.org/packages/bc/91/b38c4fabb6e5092ab23492ded4f318ab7299b19263272b703478038c0fbc/GitPython-3.1.18-py3-none-any.whl#sha256=fce760879cd2aebd2991b3542876dc5c4a909b30c9d69dfc488e504a8db37ee8
Best match: GitPython 3.1.18
Processing GitPython-3.1.18-py3-none-any.whl
Installing GitPython-3.1.18-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding GitPython 3.1.18 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/GitPython-3.1.18-py3.7.egg
Searching for dill
Reading https://pypi.org/simple/dill/
Downloading https://files.pythonhosted.org/packages/b6/c3/973676ceb86b60835bb3978c6db67a5dc06be6cfdbd14ef0f5a13e3fc9fd/dill-0.3.4-py2.py3-none-any.whl#sha256=7e40e4a70304fd9ceab3535d36e58791d9c4a776b38ec7f7ec9afc8d3dca4d4f
Best match: dill 0.3.4
Processing dill-0.3.4-py2.py3-none-any.whl
Installing dill-0.3.4-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding dill 0.3.4 to easy-install.pth file
Installing get_objgraph script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin
Installing undill script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/dill-0.3.4-py3.7.egg
Searching for jdcal
Reading https://pypi.org/simple/jdcal/
Downloading https://files.pythonhosted.org/packages/f0/da/572cbc0bc582390480bbd7c4e93d14dc46079778ed915b505dc494b37c57/jdcal-1.4.1-py2.py3-none-any.whl#sha256=1abf1305fce18b4e8aa248cf8fe0c56ce2032392bc64bbd61b5dff2a19ec8bba
Best match: jdcal 1.4.1
Processing jdcal-1.4.1-py2.py3-none-any.whl
Installing jdcal-1.4.1-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding jdcal 1.4.1 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jdcal-1.4.1-py3.7.egg
Searching for et-xmlfile
Reading https://pypi.org/simple/et-xmlfile/
Downloading https://files.pythonhosted.org/packages/96/c2/3dd434b0108730014f1b96fd286040dc3bcb70066346f7e01ec2ac95865f/et_xmlfile-1.1.0-py3-none-any.whl#sha256=a2ba85d1d6a74ef63837eed693bcb89c3f752169b0e3e7ae5b16ca5e1b3deada
Best match: et-xmlfile 1.1.0
Processing et_xmlfile-1.1.0-py3-none-any.whl
Installing et_xmlfile-1.1.0-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding et-xmlfile 1.1.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/et_xmlfile-1.1.0-py3.7.egg
Searching for IPython>=0.13
Reading https://pypi.org/simple/IPython/
Downloading https://files.pythonhosted.org/packages/f7/b2/733ea4551a04866bbcfbbade4d9d2c82c829cf1cc6fac1ac5974b8c7f756/ipython-7.25.0-py3-none-any.whl#sha256=aa21412f2b04ad1a652e30564fff6b4de04726ce875eab222c8430edc6db383a
Best match: ipython 7.25.0
Processing ipython-7.25.0-py3-none-any.whl
Installing ipython-7.25.0-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding ipython 7.25.0 to easy-install.pth file
Installing iptest script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin
Installing iptest3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin
Installing ipython script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin
Installing ipython3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/ipython-7.25.0-py3.7.egg
Searching for gitdb<5,>=4.0.1
Reading https://pypi.org/simple/gitdb/
Downloading https://files.pythonhosted.org/packages/ea/e8/f414d1a4f0bbc668ed441f74f44c116d9816833a48bf81d22b697090dba8/gitdb-4.0.7-py3-none-any.whl#sha256=6c4cc71933456991da20917998acbe6cf4fb41eeaab7d6d67fbc05ecd4c865b0
Best match: gitdb 4.0.7
Processing gitdb-4.0.7-py3-none-any.whl
Installing gitdb-4.0.7-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding gitdb 4.0.7 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/gitdb-4.0.7-py3.7.egg
Searching for traitlets>=4.2
Reading https://pypi.org/simple/traitlets/
Downloading https://files.pythonhosted.org/packages/f6/7d/3ecb0ebd0ce8dcdfa7bd47ab85c1d4a521e6770ef283d0824f5804994dfe/traitlets-5.0.5-py3-none-any.whl#sha256=69ff3f9d5351f31a7ad80443c2674b7099df13cc41fc5fa6e2f6d3b0330b0426
Best match: traitlets 5.0.5
Processing traitlets-5.0.5-py3-none-any.whl
Installing traitlets-5.0.5-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding traitlets 5.0.5 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/traitlets-5.0.5-py3.7.egg
Searching for prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0
Reading https://pypi.org/simple/prompt-toolkit/
Downloading https://files.pythonhosted.org/packages/1e/34/1d9880ac1339ad4c6697b330e7a507584105613751318249d9e820faa25f/prompt_toolkit-3.0.19-py3-none-any.whl#sha256=7089d8d2938043508aa9420ec18ce0922885304cddae87fb96eebca942299f88
Best match: prompt-toolkit 3.0.19
Processing prompt_toolkit-3.0.19-py3-none-any.whl
Installing prompt_toolkit-3.0.19-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding prompt-toolkit 3.0.19 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/prompt_toolkit-3.0.19-py3.7.egg
Searching for pickleshare
Reading https://pypi.org/simple/pickleshare/
Downloading https://files.pythonhosted.org/packages/9a/41/220f49aaea88bc6fa6cba8d05ecf24676326156c23b991e80b3f2fc24c77/pickleshare-0.7.5-py2.py3-none-any.whl#sha256=9649af414d74d4df115d5d718f82acb59c9d418196b7b4290ed47a12ce62df56
Best match: pickleshare 0.7.5
Processing pickleshare-0.7.5-py2.py3-none-any.whl
Installing pickleshare-0.7.5-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding pickleshare 0.7.5 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/pickleshare-0.7.5-py3.7.egg
Searching for pexpect>4.3
Reading https://pypi.org/simple/pexpect/
Downloading https://files.pythonhosted.org/packages/39/7b/88dbb785881c28a102619d46423cb853b46dbccc70d3ac362d99773a78ce/pexpect-4.8.0-py2.py3-none-any.whl#sha256=0b48a55dcb3c05f3329815901ea4fc1537514d6ba867a152b581d69ae3710937
Best match: pexpect 4.8.0
Processing pexpect-4.8.0-py2.py3-none-any.whl
Installing pexpect-4.8.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding pexpect 4.8.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/pexpect-4.8.0-py3.7.egg
Searching for matplotlib-inline
Reading https://pypi.org/simple/matplotlib-inline/
Downloading https://files.pythonhosted.org/packages/7f/de/6c111d687335729cf8c156394c8d119b0dc3c34b6966ff2a2f7fe4aa79cf/matplotlib_inline-0.1.2-py3-none-any.whl#sha256=5cf1176f554abb4fa98cb362aa2b55c500147e4bdbb07e3fda359143e1da0811
Best match: matplotlib-inline 0.1.2
Processing matplotlib_inline-0.1.2-py3-none-any.whl
Installing matplotlib_inline-0.1.2-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding matplotlib-inline 0.1.2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/matplotlib_inline-0.1.2-py3.7.egg
Searching for jedi>=0.16
Reading https://pypi.org/simple/jedi/
Downloading https://files.pythonhosted.org/packages/f9/36/7aa67ae2663025b49e8426ead0bad983fee1b73f472536e9790655da0277/jedi-0.18.0-py2.py3-none-any.whl#sha256=18456d83f65f400ab0c2d3319e48520420ef43b23a086fdc05dff34132f0fb93
Best match: jedi 0.18.0
Processing jedi-0.18.0-py2.py3-none-any.whl
Installing jedi-0.18.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding jedi 0.18.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/jedi-0.18.0-py3.7.egg
Searching for decorator
Reading https://pypi.org/simple/decorator/
Downloading https://files.pythonhosted.org/packages/6a/36/b1b9bfdf28690ae01d9ca0aa5b0d07cb4448ac65fb91dc7e2d094e3d992f/decorator-5.0.9-py3-none-any.whl#sha256=6e5c199c16f7a9f0e3a61a4a54b3d27e7dad0dbdde92b944426cb20914376323
Best match: decorator 5.0.9
Processing decorator-5.0.9-py3-none-any.whl
Installing decorator-5.0.9-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding decorator 5.0.9 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/decorator-5.0.9-py3.7.egg
Searching for backcall
Reading https://pypi.org/simple/backcall/
Downloading https://files.pythonhosted.org/packages/4c/1c/ff6546b6c12603d8dd1070aa3c3d273ad4c07f5771689a7b69a550e8c951/backcall-0.2.0-py2.py3-none-any.whl#sha256=fbbce6a29f263178a1f7915c1940bde0ec2b2a967566fe1c65c1dfb7422bd255
Best match: backcall 0.2.0
Processing backcall-0.2.0-py2.py3-none-any.whl
Installing backcall-0.2.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding backcall 0.2.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/backcall-0.2.0-py3.7.egg
Searching for smmap<5,>=3.0.1
Reading https://pypi.org/simple/smmap/
Downloading https://files.pythonhosted.org/packages/68/ee/d540eb5e5996eb81c26ceffac6ee49041d473bc5125f2aa995cf51ec1cf1/smmap-4.0.0-py2.py3-none-any.whl#sha256=a9a7479e4c572e2e775c404dcd3080c8dc49f39918c2cf74913d30c4c478e3c2
Best match: smmap 4.0.0
Processing smmap-4.0.0-py2.py3-none-any.whl
Installing smmap-4.0.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding smmap 4.0.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/smmap-4.0.0-py3.7.egg
Searching for ipython-genutils
Reading https://pypi.org/simple/ipython-genutils/
Downloading https://files.pythonhosted.org/packages/fa/bc/9bd3b5c2b4774d5f33b2d544f1460be9df7df2fe42f352135381c347c69a/ipython_genutils-0.2.0-py2.py3-none-any.whl#sha256=72dd37233799e619666c9f639a9da83c34013a73e8bbc79a7a6348d93c61fab8
Best match: ipython-genutils 0.2.0
Processing ipython_genutils-0.2.0-py2.py3-none-any.whl
Installing ipython_genutils-0.2.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding ipython-genutils 0.2.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/ipython_genutils-0.2.0-py3.7.egg
Searching for wcwidth
Reading https://pypi.org/simple/wcwidth/
Downloading https://files.pythonhosted.org/packages/59/7c/e39aca596badaf1b78e8f547c807b04dae603a433d3e7a7e04d67f2ef3e5/wcwidth-0.2.5-py2.py3-none-any.whl#sha256=beb4802a9cebb9144e99086eff703a642a13d6a0052920003a230f3294bbe784
Best match: wcwidth 0.2.5
Processing wcwidth-0.2.5-py2.py3-none-any.whl
Installing wcwidth-0.2.5-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding wcwidth 0.2.5 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/wcwidth-0.2.5-py3.7.egg
Searching for ptyprocess>=0.5
Reading https://pypi.org/simple/ptyprocess/
Downloading https://files.pythonhosted.org/packages/22/a6/858897256d0deac81a172289110f31629fc4cee19b6f01283303e18c8db3/ptyprocess-0.7.0-py2.py3-none-any.whl#sha256=4b41f3967fce3af57cc7e94b888626c18bf37a083e3651ca8feeb66d492fef35
Best match: ptyprocess 0.7.0
Processing ptyprocess-0.7.0-py2.py3-none-any.whl
Installing ptyprocess-0.7.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding ptyprocess 0.7.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/ptyprocess-0.7.0-py3.7.egg
Searching for parso<0.9.0,>=0.8.0
Reading https://pypi.org/simple/parso/
Downloading https://files.pythonhosted.org/packages/a9/c4/d5476373088c120ffed82f34c74b266ccae31a68d665b837354d4d8dc8be/parso-0.8.2-py2.py3-none-any.whl#sha256=a8c4922db71e4fdb90e0d0bc6e50f9b273d3397925e5e60a717e719201778d22
Best match: parso 0.8.2
Processing parso-0.8.2-py2.py3-none-any.whl
Installing parso-0.8.2-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Adding parso 0.8.2 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/parso-0.8.2-py3.7.egg
Searching for numba==0.48.0
Best match: numba 0.48.0
Adding numba 0.48.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for scipy==1.5.3
Best match: scipy 1.5.3
Adding scipy 1.5.3 to easy-install.pth file

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for numpy==1.19.2
Best match: numpy 1.19.2
numpy 1.19.2 is already the active version in easy-install.pth
Installing f2py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin
Installing f2py3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin
Installing f2py3.7 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for matplotlib==3.3.2
Best match: matplotlib 3.3.2
matplotlib 3.3.2 is already the active version in easy-install.pth

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for six==1.16.0
Best match: six 1.16.0
Adding six 1.16.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for pyparsing==2.4.7
Best match: pyparsing 2.4.7
Adding pyparsing 2.4.7 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for llvmlite==0.31.0
Best match: llvmlite 0.31.0
Adding llvmlite 0.31.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for setuptools==57.1.0
Best match: setuptools 57.1.0
Adding setuptools 57.1.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for pytz==2021.1
Best match: pytz 2021.1
Adding pytz 2021.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for python-dateutil==2.8.1
Best match: python-dateutil 2.8.1
python-dateutil 2.8.1 is already the active version in easy-install.pth

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for cycler==0.10.0
Best match: cycler 0.10.0
cycler 0.10.0 is already the active version in easy-install.pth

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for certifi==2021.5.30
Best match: certifi 2021.5.30
Adding certifi 2021.5.30 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for kiwisolver==1.2.0
Best match: kiwisolver 1.2.0
kiwisolver 1.2.0 is already the active version in easy-install.pth

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for Pillow==8.0.0
Best match: Pillow 8.0.0
Pillow 8.0.0 is already the active version in easy-install.pth

Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages
Searching for importlib-metadata==4.6.1
Best match: importlib-metadata 4.6.1
Adding importlib-metadata 4.6.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for typing-extensions==3.10.0.0
Best match: typing-extensions 3.10.0.0
Adding typing-extensions 3.10.0.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for Pygments==2.9.0
Best match: Pygments 2.9.0
Adding Pygments 2.9.0 to easy-install.pth file
Installing pygmentize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Searching for zipp==3.5.0
Best match: zipp 3.5.0
Adding zipp 3.5.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages
Finished processing dependencies for synthpops==1.10.4

[rtd-command-info] start-time: 2021-07-05T22:19:15.815796Z, end-time: 2021-07-05T22:19:15.912839Z, duration: 0, exit-code: 0
git rev-parse HEAD
d17d2bcf2f041e204a51a0c5a1c9bdad3022d7f1

[rtd-command-info] start-time: 2021-07-05T22:19:16.153984Z, end-time: 2021-07-05T22:19:16.231108Z, duration: 0, exit-code: 0
cat docs/conf.py
# -*- coding: utf-8 -*-
#
# Configuration file for the Sphinx documentation builder.
#
# This file does only contain a selection of the most common options. For a
# full list see the documentation:
# http://www.sphinx-doc.org/en/master/config


# If extensions (or modules to document with autodoc) are in another directory,
# add these directories to sys.path here. If the directory is relative to the
# documentation root, use os.path.abspath to make it absolute, like shown here.
#
import os
import subprocess
import sys
import sphinx_rtd_theme
from datetime import datetime
import synthpops as sp

on_rtd = os.environ.get('READTHEDOCS') == 'True'

if sys.platform in ["linux", "darwin"]:
    subprocess.check_output(["make", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__)))
else:
    subprocess.check_output(["make.bat", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__)))

# Rename "synthpops package" to "API reference"
filename = 'modules.rst' # This must match the Makefile
with open(filename) as f: # Read existing file
    lines = f.readlines()
lines[0] = "API reference\n" # Blast away the existing heading and replace with this
lines[1] = "=============\n" # Ensure the heading is the right length
with open(filename, "w") as f: # Write new file
    f.writelines(lines)

# -- General configuration ------------------------------------------------

# If your documentation needs a minimal Sphinx version, state it here.
# needs_sphinx = '1.0'

# Add any Sphinx extension module names here, as strings. They can be
# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
# ones.
extensions = [
    'sphinx.ext.mathjax',
    'sphinx.ext.githubpages',
    'sphinx.ext.autodoc',
    'sphinx.ext.napoleon',
    'sphinx.ext.todo',
    'sphinx.ext.viewcode',  # Add a link to the Python source code for classes, functions etc.
]

autodoc_default_options = {
    'member-order': 'bysource',
    'members': None
}

autodoc_mock_imports = []


napoleon_google_docstring = True

# Configure autosummary
autosummary_generate = True  # Turn on sphinx.ext.autosummary
autoclass_content = "both"  # Add __init__ doc (ie. params) to class summaries
html_show_sourcelink = False  # Remove 'view source code' from top of page (for html, not python)
autodoc_member_order = 'bysource' # Keep original ordering
add_module_names = False  # NB, does not work
autodoc_inherit_docstrings = False # Stops sublcasses from including docs from parent classes

# Add any paths that contain templates here, relative to this directory.
templates_path = ['_templates']

# The suffix(es) of source filenames.
# You can specify multiple suffix as a list of string:
source_suffix = '.rst'
master_doc = 'index'

# General information about the project.
project = 'SynthPops'
copyright = f'1999 - {datetime.today().year}, Bill & Melinda Gates Foundation. All rights reserved.\nThese docs were built for SynthPops version {sp.__version__}.\n'
author = 'Institute for Disease Modeling'

# The version info for the project you're documenting, acts as replacement for
# |version| and |release|, also used in various other places throughout the
# built documents.
#
# The short X.Y version.
version = sp.__version__
# The full version, including alpha/beta/rc tags.
release = sp.__version__

# The language for content autogenerated by Sphinx. Refer to documentation
# for a list of supported languages.
#
# This is also used if you do content translation via gettext catalogs.
# Usually you set "language" from the command line for these cases.
language = None

# List of patterns, relative to source directory, that match files and
# directories to ignore when looking for source files.
# This patterns also effect to html_static_path and html_extra_path
exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']

# suppress warnings for multiple possible Python references in the namespace
# suppress_warnings = ['ref.python']
pygments_style = 'sphinx'

# If true, `todo` and `todoList` produce output, else they produce nothing.
todo_include_todos = False

# RST epilog is added to the end of every topic. Useful for replace
# directives to use across the docset.
rst_epilog = "\n.. include:: /variables.txt"

# -- Options for HTML output ----------------------------------------------

# The theme to use for HTML and HTML Help pages.  See the documentation for
# a list of builtin themes.
#
html_theme = 'sphinx_rtd_theme'

# Add any paths that contain custom themes here, relative to this directory.
html_theme_path = [sphinx_rtd_theme.get_html_theme_path()]


html_logo = "images/IDM_white.png"
html_favicon = "images/favicon.ico"

# Add any paths that contain custom static files (such as style sheets) here,
# relative to this directory. They are copied after the builtin static files,
# so a file named "default.css" will overwrite the builtin "default.css".
html_static_path = ['_static']

html_context = {
    'rtd_url': 'https://docs.idmod.org/projects/synthpops/en/latest',
    'theme_vcs_pageview_mode': 'edit',
    'css_files': [
        '_static/theme_overrides.css'
    ]
}
# Add any extra paths that contain custom files (such as robots.txt or
# .htaccess) here, relative to this directory. These files are copied
# directly to the root of the documentation.
#
if not on_rtd:
    html_extra_path = ['robots.txt']

# If not None, a 'Last updated on:' timestamp is inserted at every page
# bottom, using the given strftime format.
# The empty string is equivalent to '%b %d, %Y'.
#
html_last_updated_fmt = '%Y-%b-%d'


# If true, "Created using Sphinx" is shown in the HTML footer. Default is True.
html_show_sphinx = False

# If true, an OpenSearch description file will be output, and all pages will
# contain a <link> tag referring to it.  The value of this option must be the
# base URL from which the finished HTML is served.
html_use_opensearch = 'docs.idmod.org/projects/synthpops/en/latest'

# Output file base name for HTML help builder.
htmlhelp_basename = 'SynthPops'

# -- Options for LaTeX output ---------------------------------------------

latex_elements = {
    # The paper size ('letterpaper' or 'a4paper').
    # 'papersize': 'letterpaper',
    # The font size ('10pt', '11pt' or '12pt').
    # 'pointsize': '10pt',
    # Additional stuff for the LaTeX preamble.
    'preamble': '%XeLaTeX packages'
                '\\usepackage{xltxtra}'
                '\\usepackage{fontspec} %%Font package'
                '\\usepackage{xunicode}'
                '%%Select fonts'
                '\\setmainfont[Mapping=tex-text]{nimbusserif}'
                '\\setsansfont[Mapping=tex-text]{nimbussans}'
                '\\setmonofont{nimbusmono}',

    # Latex figure (float) alignment
    #
    # 'figure_align': 'htbp',
}

# Grouping the document tree into LaTeX files. List of tuples
# (source start file, target name, title,
#  author, documentclass [howto, manual, or own class]).
latex_documents = [
    (master_doc, 'synthpops-docs.tex', u'SynthPops',
     'Institute for Disease Modeling', 'manual'),
]

# The name of an image file (relative to this directory) to place at the top of
# the title page.
#
# latex_logo = None

# -- Options for manual page output ---------------------------------------

# One entry per manual page. List of tuples
# (source start file, name, description, authors, manual section).
man_pages = [
    (master_doc, 'synthpops-docs', 'SynthPops',
     [author], 1)
]

# If true, show URL addresses after external links.
#
man_show_urls = True

# -- Options for Texinfo output -------------------------------------------

# Grouping the document tree into Texinfo files. List of tuples
# (source start file, target name, title, author,
#  dir menu entry, description, category)
texinfo_documents = [
    (master_doc, 'synthpops-docs', 'SynthPops',
     author, 'Institute for Disease Modeling', 'How to use SynthPops for creating synthetic populations.',
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]

# Example configuration for intersphinx: refer to the Python standard library.
# intersphinx_mapping = {'https://docs.python.org/': None}




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#
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# It is auto created and injected for every build. The result is based on the
# conf.py.tmpl file found in the readthedocs.org codebase:
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import sys
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[rtd-command-info] start-time: 2021-07-05T22:19:16.341131Z, end-time: 2021-07-05T22:19:48.714962Z, duration: 32, exit-code: 0
python -m sphinx -T -E -W --keep-going -b html -d _build/doctrees -D language=en . _build/html
Running Sphinx v1.8.5
loading translations [en]... done
making output directory...
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 34 source files that are out of date
updating environment: 34 added, 0 changed, 0 removed
reading sources... [  2%] algorithm
reading sources... [  5%] glossary
reading sources... [  8%] households
reading sources... [ 11%] index
reading sources... [ 14%] input_data
reading sources... [ 17%] installation
reading sources... [ 20%] modules
reading sources... [ 23%] overview
reading sources... [ 26%] schools
reading sources... [ 29%] synthpops.base
reading sources... [ 32%] synthpops.config
reading sources... [ 35%] synthpops.contact_networks
reading sources... [ 38%] synthpops.data
reading sources... [ 41%] synthpops.data_distributions
reading sources... [ 44%] synthpops.defaults
reading sources... [ 47%] synthpops.households
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reading sources... [ 52%] synthpops.people
reading sources... [ 55%] synthpops.people.country_age_data
reading sources... [ 58%] synthpops.people.household_size_data
reading sources... [ 61%] synthpops.people.loaders
reading sources... [ 64%] synthpops.people.makepop
reading sources... [ 67%] synthpops.people.people
reading sources... [ 70%] synthpops.people.state_age_data
reading sources... [ 73%] synthpops.people.utils
reading sources... [ 76%] synthpops.plotting
reading sources... [ 79%] synthpops.pop
reading sources... [ 82%] synthpops.sampling
reading sources... [ 85%] synthpops.schools
reading sources... [ 88%] synthpops.version
reading sources... [ 91%] synthpops.workplaces
reading sources... [ 94%] usage
reading sources... [ 97%] whatsnew
reading sources... [100%] workplaces

looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
writing output... [  2%] algorithm
writing output... [  5%] glossary
writing output... [  8%] households
writing output... [ 11%] index
writing output... [ 14%] input_data
writing output... [ 17%] installation
writing output... [ 20%] modules
writing output... [ 23%] overview
writing output... [ 26%] schools
writing output... [ 29%] synthpops.base
writing output... [ 32%] synthpops.config
writing output... [ 35%] synthpops.contact_networks
writing output... [ 38%] synthpops.data
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writing output... [ 44%] synthpops.defaults
writing output... [ 47%] synthpops.households
writing output... [ 50%] synthpops.ltcfs
writing output... [ 52%] synthpops.people
writing output... [ 55%] synthpops.people.country_age_data
writing output... [ 58%] synthpops.people.household_size_data
writing output... [ 61%] synthpops.people.loaders
writing output... [ 64%] synthpops.people.makepop
writing output... [ 67%] synthpops.people.people
writing output... [ 70%] synthpops.people.state_age_data
writing output... [ 73%] synthpops.people.utils
writing output... [ 76%] synthpops.plotting
writing output... [ 79%] synthpops.pop
writing output... [ 82%] synthpops.sampling
writing output... [ 85%] synthpops.schools
writing output... [ 88%] synthpops.version
writing output... [ 91%] synthpops.workplaces
writing output... [ 94%] usage
writing output... [ 97%] whatsnew
writing output... [100%] workplaces

generating indices... genindex py-modindex
highlighting module code... [  5%] jsonobject.base_properties
highlighting module code... [ 10%] jsonobject.properties
highlighting module code... [ 15%] synthpops.base
highlighting module code... [ 21%] synthpops.config
highlighting module code... [ 26%] synthpops.contact_networks
highlighting module code... [ 31%] synthpops.data
highlighting module code... [ 36%] synthpops.data_distributions
highlighting module code... [ 42%] synthpops.defaults
highlighting module code... [ 47%] synthpops.households
highlighting module code... [ 52%] synthpops.ltcfs
highlighting module code... [ 57%] synthpops.people.loaders
highlighting module code... [ 63%] synthpops.people.makepop
highlighting module code... [ 68%] synthpops.people.people
highlighting module code... [ 73%] synthpops.people.utils
highlighting module code... [ 78%] synthpops.plotting
highlighting module code... [ 84%] synthpops.pop
highlighting module code... [ 89%] synthpops.sampling
highlighting module code... [ 94%] synthpops.schools
highlighting module code... [100%] synthpops.workplaces

writing additional pages... search opensearch
copying static files... done
copying extra files... done
dumping search index in English (code: en) ... done
dumping object inventory... done
build succeeded.

The HTML pages are in _build/html.
Updating searchtools for Read the Docs search... /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/sphinx/util/nodes.py:94: FutureWarning: 
   The iterable returned by Node.traverse()
   will become an iterator instead of a list in Docutils > 0.16.
  for classifier in reversed(node.parent.traverse(nodes.classifier)):

[rtd-command-info] start-time: 2021-07-05T22:19:48.868616Z, end-time: 2021-07-05T22:19:55.210595Z, duration: 6, exit-code: 0
python -m sphinx -T -W --keep-going -b readthedocssinglehtmllocalmedia -d _build/doctrees -D language=en . _build/localmedia
Running Sphinx v1.8.5
loading translations [en]... done
making output directory...
loading pickled environment... done
building [mo]: targets for 0 po files that are out of date
building [readthedocssinglehtmllocalmedia]: all documents
updating environment: [] 0 added, 1 changed, 0 removed
reading sources... [100%] modules

looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
assembling single document... installation overview whatsnew algorithm usage households schools workplaces input_data modules synthpops.people synthpops.people.country_age_data synthpops.people.household_size_data synthpops.people.loaders synthpops.people.makepop synthpops.people.people synthpops.people.state_age_data synthpops.people.utils synthpops.base synthpops.config synthpops.contact_networks synthpops.data synthpops.data_distributions synthpops.defaults synthpops.households synthpops.ltcfs synthpops.plotting synthpops.pop synthpops.sampling synthpops.schools synthpops.version synthpops.workplaces glossary 
writing... done
writing additional files... opensearch
copying static files... done
copying extra files... done
dumping object inventory... done
build succeeded.

The HTML page is in _build/localmedia.
Updating searchtools for Read the Docs search...

[rtd-command-info] start-time: 2021-07-05T22:19:55.361136Z, end-time: 2021-07-05T22:20:01.498184Z, duration: 6, exit-code: 0
python -m sphinx -b latex -D language=en -d _build/doctrees . _build/latex
Running Sphinx v1.8.5
loading translations [en]... done
making output directory...
loading pickled environment... done
building [mo]: targets for 0 po files that are out of date
building [latex]: all documents
updating environment: [] 0 added, 1 changed, 0 removed
reading sources... [100%] modules

looking for now-outdated files... none found
pickling environment... done
checking consistency... done
processing synthpops-docs.tex...index installation overview whatsnew algorithm usage households schools workplaces input_data modules synthpops.people synthpops.people.country_age_data synthpops.people.household_size_data synthpops.people.loaders synthpops.people.makepop synthpops.people.people synthpops.people.state_age_data synthpops.people.utils synthpops.base synthpops.config synthpops.contact_networks synthpops.data synthpops.data_distributions synthpops.defaults synthpops.households synthpops.ltcfs synthpops.plotting synthpops.pop synthpops.sampling synthpops.schools synthpops.version synthpops.workplaces glossary 
resolving references...
writing... done
copying TeX support files...
done
build succeeded.

The LaTeX files are in _build/latex.
Run 'make' in that directory to run these through (pdf)latex
(use `make latexpdf' here to do that automatically).
/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/envs/latest/lib/python3.7/site-packages/sphinx/builders/latex/__init__.py:201: FutureWarning: 
   The iterable returned by Node.traverse()
   will become an iterator instead of a list in Docutils > 0.16.
  if toctrees[0].get('maxdepth') > 0:
WARNING: Missing searchtools: /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-synthpops-test/checkouts/latest/docs/_build/latex/_static/searchtools.js

[rtd-command-info] start-time: 2021-07-05T22:20:01.782721Z, end-time: 2021-07-05T22:20:01.870121Z, duration: 0, exit-code: 0
cat latexmkrc
$latex = 'latex ' . $ENV{'LATEXOPTS'} . ' %O %S';
$pdflatex = 'pdflatex ' . $ENV{'LATEXOPTS'} . ' %O %S';
$lualatex = 'lualatex ' . $ENV{'LATEXOPTS'} . ' %O %S';
$xelatex = 'xelatex --no-pdf ' . $ENV{'LATEXOPTS'} . ' %O %S';
$makeindex = 'makeindex -s python.ist %O -o %D %S';
add_cus_dep( "glo", "gls", 0, "makeglo" );
sub makeglo {
 return system( "makeindex -s gglo.ist -o '$_[0].gls' '$_[0].glo'" );
}

[rtd-command-info] start-time: 2021-07-05T22:20:02.000797Z, end-time: 2021-07-05T22:20:05.251767Z, duration: 3, exit-code: 0
latexmk -r latexmkrc -pdf -f -dvi- -ps- -jobname=institute-for-disease-modeling-synthpops-test -interaction=nonstopmode
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 1, <GEN1> chunk 1.
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Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 4, <GEN1> chunk 1.
Subroutine makeglo redefined at (eval 11) line 7, <GEN2> chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 1, <GEN2> chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 2, <GEN2> chunk 1.
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Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 4, <GEN2> chunk 1.
Latexmk: This is Latexmk, John Collins, 1 January 2015, version: 4.41.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/bin/latexmk line 7482.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex   -interaction=nonstopmode -recorder --jobname="institute-for-disease-modeling-synthpops-test"  "synthpops-docs.tex"'
------------
Latexmk: applying rule 'pdflatex'...
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entering extended mode
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Chapter 2.
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Chapter 3.
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Chapter 5.

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Chapter 6.

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Chapter 1.
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Chapter 2.
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Chapter 3.
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[]\T1/ptm/m/it/10 Fix\T1/ptm/m/n/10 : Re-in-stat-ing pre-vi-ous tests on meth-o
ds within \T1/pcr/m/n/10 sp.data.py \T1/ptm/m/n/10 and up-dat-ing \T1/pcr/m/n/1
0 sp.
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[]\T1/ptm/m/n/10 Method to gen-er-ate the count of house-hold sizes for a fixed
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[]\T1/ptm/m/n/10 Method name changes: \T1/pcr/m/n/10 sp.get_age_by_brackets_dic
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\T1/pcr/m/n/10 get_age_by_brackets()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sp.get_inde
x_by_brackets_dic() \T1/ptm/m/n/10 -> \T1/pcr/m/n/10 sp.

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[]\T1/ptm/m/it/10 Feature\T1/ptm/m/n/10 : new sum-mary in-for-ma-tion added to 
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\T1/pcr/m/n/10 check_all_probability_distribution_sums()\T1/ptm/m/n/10 , \T1/pc
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Chapter 4.
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Chapter 5.
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Chapter 6.

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/n/10 , \T1/ptm/m/it/10 hha_by_size\T1/ptm/m/n/10 , \T1/ptm/m/it/10 hha_bracket
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s\T1/ptm/m/n/10 , \T1/ptm/m/it/10 work-ers_by_age_to_assign_count\T1/ptm/m/n/10
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rray([]\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dtype=int64)\T1/ptm/m/n/10 ,
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tm/m/n/10 , \T1/ptm/m/it/10 ltcf_pars=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 scho
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ol_types=False\T1/ptm/m/n/10 , \T1/ptm/m/it/10 school_mixing_type='random'\T1/p
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de_mixing=0.1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 av-er-age_student_teacher_ratio=2
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([]\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dtype=int64)\T1/ptm/m/n/10 , \T1/ptm/m/it/1
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[99] [100] [101] [102]
Chapter 7.
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[]\T1/pcr/m/n/10 generate_larger_households_fixed_ages()
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Underfull \hbox (badness 10000) in paragraph at lines 387--388
[]\T1/ptm/m/n/10 Method to gen-er-ate the count of house-hold sizes for a fixed
 pop-u-la-tion re-named: \T1/pcr/m/n/10 sp.

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\T1/pcr/m/n/10 households.generate_household_sizes_from_fixed_pop_size \T1/ptm/
m/n/10 ^^U> \T1/pcr/m/n/10 sp.households.
[10]
Underfull \hbox (badness 10000) in paragraph at lines 450--451
[]\T1/ptm/m/n/10 Method name changes: \T1/pcr/m/n/10 sp.get_age_by_brackets_dic
() \T1/ptm/m/n/10 -> \T1/pcr/m/n/10 sp.

Underfull \hbox (badness 10000) in paragraph at lines 450--451
\T1/pcr/m/n/10 get_age_by_brackets()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sp.get_inde
x_by_brackets_dic() \T1/ptm/m/n/10 -> \T1/pcr/m/n/10 sp.

Underfull \hbox (badness 10000) in paragraph at lines 450--451
\T1/pcr/m/n/10 get_index_by_brackets()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sp.get_id
s_by_age_dic() \T1/ptm/m/n/10 -> \T1/pcr/m/n/10 sp.get_ids_by_age()\T1/ptm/m/n/
10 ,

Underfull \hbox (badness 10000) in paragraph at lines 450--451
\T1/pcr/m/n/10 sp.make_contacts_from_microstructure_objects() \T1/ptm/m/n/10 ->
 \T1/pcr/m/n/10 sp.make_contacts()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sp.
[11]
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[]\T1/ptm/m/it/10 Feature\T1/ptm/m/n/10 : new sum-mary in-for-ma-tion added to 
pop ob-jects: \T1/pcr/m/n/10 pop.summary.average_age\T1/ptm/m/n/10 ,

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\T1/pcr/m/n/10 pop.summary.layer_degrees\T1/ptm/m/n/10 , \T1/pcr/m/n/10 pop.sum
mary.layer_stats\T1/ptm/m/n/10 , and \T1/pcr/m/n/10 pop.summary.

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[]\T1/ptm/m/it/10 Feature\T1/ptm/m/n/10 : Added checks for prob-a-bil-ity dis-t
ri-bu-tions with meth-ods \T1/pcr/m/n/10 sp.

Overfull \hbox (114.26503pt too wide) in paragraph at lines 560--561
\T1/pcr/m/n/10 check_all_probability_distribution_sums()\T1/ptm/m/n/10 , \T1/pc
r/m/n/10 sp.check_all_probability_distrubution_nonnegative()\T1/ptm/m/n/10 ,

Overfull \hbox (78.26503pt too wide) in paragraph at lines 560--561
\T1/pcr/m/n/10 sp.check_probability_distribution_sum()\T1/ptm/m/n/10 , \T1/pcr/
m/n/10 sp.check_probability_distribution_nonnegative()\T1/ptm/m/n/10 .
[12]
Underfull \hbox (badness 10000) in paragraph at lines 597--598
[]\T1/ptm/m/it/10 Feature\T1/ptm/m/n/10 : Added new meth-ods, \T1/pcr/m/n/10 sp
.get_household_head_ages_by_size()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sp.

Underfull \hbox (badness 10000) in paragraph at lines 597--598
\T1/pcr/m/n/10 plot_household_head_ages_by_size()\T1/ptm/m/n/10 . Also ac-ces-s
i-ble pop meth-ods as \T1/pcr/m/n/10 pop.

Underfull \hbox (badness 10000) in paragraph at lines 597--598
\T1/pcr/m/n/10 get_household_head_ages_by_size()\T1/ptm/m/n/10 , \T1/pcr/m/n/10
 pop.plot_household_head_ages_by_size()\T1/ptm/m/n/10 .
[13] [14]
Chapter 4.
[15] [16]
Chapter 5.
[17] [18] [19]
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[]\T1/ptm/b/n/10 Enrollment by age \T1/ptm/m/n/10 spec-i-fy-ing the per-cent-ag
e of peo-ple of each age at-tend-ing school. See
[20] [21] [22] [23] [24] [25]
Overfull \vbox (0.68163pt too high) detected at line 1465
[26] [27] [28] [29] [30]
Chapter 6.

Underfull \hbox (badness 10000) in paragraph at lines 1--1646
[][][]$\T1/ptm/m/n/10 https : / / population . un . org / household / exceldata
 / population _ division _ UN _ Houseshold _ Size _ and _ Composition _ 2019 .
[31]
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[]\T1/ptm/m/it/10 n=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 pop-dict=None\T1/ptm/m
/n/10 , \T1/ptm/m/it/10 rand_seed=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 pop_type='s
ynthpops'\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\T1/ptm/m/n/10 ,
[32]
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[]\T1/ptm/m/it/10 sim\T1/ptm/m/n/10 , \T1/ptm/m/it/10 use_age_data=True\T1/ptm/
m/n/10 , \T1/ptm/m/it/10 use_household_data=True\T1/ptm/m/n/10 , \T1/ptm/m/it/1
0 sex_ratio=0.5\T1/ptm/m/n/10 , \T1/ptm/m/it/10 mi-crostruc-
[33] [34] [35] [36] [37] [38]
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[]\T1/ptm/m/it/10 bins=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 width=1.0\T1/ptm/m/
n/10 , \T1/ptm/m/it/10 al-pha=0.6\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fig_args=None
\T1/ptm/m/n/10 , \T1/ptm/m/it/10 axis_args=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10
 plot_args=None\T1/ptm/m/n/10 ,
[39] [40] [41] [42] [43] [44] [45]
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[]\T1/ptm/m/it/10 pop\T1/ptm/m/n/10 , \T1/ptm/m/it/10 age_by_uid\T1/ptm/m/n/10 
, \T1/ptm/m/it/10 homes_by_uids\T1/ptm/m/n/10 , \T1/ptm/m/it/10 stu-dents_by_ui
d_lists=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 teach-

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\T1/ptm/m/it/10 ers_by_uid_lists=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 non_teach
ing_staff_uid_lists=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 work-

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\T1/ptm/m/it/10 school_mixing_type='random'\T1/ptm/m/n/10 , \T1/ptm/m/it/10 av-
er-age_class_size=20\T1/ptm/m/n/10 , \T1/ptm/m/it/10 in-ter_grade_mixing=0.1\T1
/ptm/m/n/10 ,

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\T1/ptm/m/it/10 av-er-age_student_teacher_ratio=20\T1/ptm/m/n/10 , \T1/ptm/m/it
/10 av-er-age_teacher_teacher_degree=3\T1/ptm/m/n/10 , \T1/ptm/m/it/10 av-

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\T1/ptm/m/it/10 er-age_student_all_staff_ratio=15\T1/ptm/m/n/10 , \T1/ptm/m/it/
10 av-er-age_additional_staff_degree=20\T1/ptm/m/n/10 ,
[46]
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\T1/ptm/m/n/10 Methods to trim large groups of con-tacts down to bet-ter ap-pro
x-i-mate a sense of close con-

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\T1/ptm/m/n/10 tacts (such as class-room sizes or smaller work groups are avail
-able via sp.trim_contacts() or

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[]\T1/ptm/m/it/10 popdict\T1/ptm/m/n/10 , \T1/ptm/m/it/10 group_1\T1/ptm/m/n/10
 , \T1/ptm/m/it/10 group_2\T1/ptm/m/n/10 , \T1/ptm/m/it/10 set-ting\T1/ptm/m/n/
10 ,

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\T1/ptm/m/it/10 av-er-age_degree=20\T1/ptm/m/n/10 , \T1/ptm/m/it/10 p_matrix=No
ne\T1/ptm/m/n/10 ,
[47] [48]
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[]\T1/ptm/m/it/10 pop\T1/ptm/m/n/10 , \T1/ptm/m/it/10 layer='H'\T1/ptm/m/n/10 ,
 \T1/ptm/m/it/10 ages=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 uids=None\T1/ptm/m/n
/10 ,
[49] [50] [51] [52] [53]
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[]\T1/ptm/m/it/10 location\T1/ptm/m/n/10 , \T1/ptm/m/it/10 prop-erty_name\T1/pt
m/m/n/10 , \T1/ptm/m/it/10 tol-er-ance=0.01\T1/ptm/m/n/10 ,

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[]\T1/ptm/m/it/10 location\T1/ptm/m/n/10 , \T1/ptm/m/it/10 prop-erty_name\T1/pt
m/m/n/10 ,

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[]\T1/ptm/m/it/10 location\T1/ptm/m/n/10 , \T1/ptm/m/it/10 tol-er-ance=0.01\T1/
ptm/m/n/10 , \T1/ptm/m/it/10 die=False\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ver-
[54] [55] [56] [57]
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-

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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 coun-try_location=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nbrack-e
ts=None\T1/ptm/m/n/10 ,
[58]
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-

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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-
[59]
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-

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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-

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[]\T1/ptm/m/it/10 datadir\T1/ptm/m/n/10 , \T1/ptm/m/it/10 set-ting_code\T1/ptm/
m/n/10 , \T1/ptm/m/it/10 sheet_name=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file_p
ath=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-lim-iter=' '\T1/ptm/m/n/10 ,
[60]
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 sheet_name=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 file_path_dic=None\T1/ptm/m/n/10 , \T1/ptm/m/it
/10 de-lim-iter=' '\T1/ptm/m/n/10 ,

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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-
[61]
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-
[62]
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
t/10 coun-
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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 , \T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 , \T1/ptm/m/i
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\T1/ptm/m/it/10 coun-try_location=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file_pat
h=None\T1/ptm/m/n/10 ,

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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion=None\
T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 try_location=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file_path=Non
e\T1/ptm/m/n/10 ,
[65]
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\T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 coun-try_location=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 file_path=None\T1/ptm/m/n/10 ,

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[]\T1/ptm/m/it/10 datadir=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 lo-ca-tion=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 file_path=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 lo-ca-tion=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 state_location=None\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 use_default=False\T1/pcr/m/n/10 ) 
[66]
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\T1/ptm/m/it/10 coun-try_location=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file_pat
h=None\T1/ptm/m/n/10 ,
[67] [68] [69]
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[]\T1/ptm/m/it/10 larger_hh_size_array\T1/ptm/m/n/10 , \T1/ptm/m/it/10 larger_h
ha_chosen\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 hha_brackets\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cm_age_brackets\T1
/ptm/m/n/10 ,

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\T1/ptm/m/it/10 cm_age_by_brackets\T1/ptm/m/n/10 , \T1/ptm/m/it/10 house-hold_m
atrix\T1/ptm/m/n/10 ,
[70]
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[]\T1/ptm/m/it/10 n_remaining\T1/ptm/m/n/10 , \T1/ptm/m/it/10 hh_sizes\T1/ptm/m
/n/10 , \T1/ptm/m/it/10 hha_by_size\T1/ptm/m/n/10 , \T1/ptm/m/it/10 hha_bracket
s\T1/ptm/m/n/10 ,

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[]\T1/ptm/m/it/10 size\T1/ptm/m/n/10 , \T1/ptm/m/it/10 larger_household_sizes\T
1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 heads_of_larger_households\T1/ptm/m/n/10 , \T1/ptm/m/it/10 hha_
brackets\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 cm_age_brackets\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cm_age_by_brack
ets\T1/ptm/m/n/10 , \T1/ptm/m/it/10 house-
[71] [72] [73]
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[]\T1/ptm/m/it/10 datadir\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lo-ca-tion\T1/ptm/m/n
/10 , \T1/ptm/m/it/10 state_location\T1/ptm/m/n/10 , \T1/ptm/m/it/10 coun-try_l
ocation\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ltcf_staff_age_min\T1/ptm/m/n/10 ,

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\T1/ptm/m/it/10 ltcf_staff_age_max\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fa-cil-i-tie
s\T1/ptm/m/n/10 , \T1/ptm/m/it/10 work-ers_by_age_to_assign_count\T1/ptm/m/n/10
 , \T1/ptm/m/it/10 po-

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\T1/ptm/m/it/10 ten-tial_worker_uids_by_age\T1/ptm/m/n/10 , \T1/ptm/m/it/10 po-
ten-tial_worker_uids\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fa-cil-i-ties_by_uids\T1/p
tm/m/n/10 ,

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[]\T1/ptm/m/it/10 ltcfid=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 res-i-dent_uids=a
rray([]\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dtype=int64)\T1/ptm/m/n/10 ,
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tm/m/n/10 , \T1/ptm/m/it/10 ltcf_pars=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 scho
ol_pars=None\T1/ptm/m/n/10 ,

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acilities=False\T1/ptm/m/n/10 , \T1/ptm/m/it/10 use_default=False\T1/ptm/m/n/10
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-er-age_LTCF_degree=20\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ltcf_staff_age_min=20\T1
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ol_types=False\T1/ptm/m/n/10 , \T1/ptm/m/it/10 school_mixing_type='random'\T1/p
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\T1/ptm/m/it/10 er-age_class_size=20\T1/ptm/m/n/10 , \T1/ptm/m/it/10 in-ter_gra
de_mixing=0.1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 av-er-age_student_teacher_ratio=2
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v-er-age_student_all_staff_ratio=15\T1/ptm/m/n/10 , \T1/ptm/m/it/10 av-er-
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[]\T1/ptm/m/it/10 student_lists\T1/ptm/m/n/10 , \T1/ptm/m/it/10 teacher_lists\T
1/ptm/m/n/10 , \T1/ptm/m/it/10 non_teaching_staff_lists\T1/ptm/m/n/10 , \T1/ptm
/m/it/10 age_by_uid\T1/ptm/m/n/10 ,
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/m/n/10 , \T1/ptm/m/it/10 school_mixing_type=None\T1/ptm/m/n/10 , \T1/ptm/m/it/
10 stu-dent_uids=array([]\T1/ptm/m/n/10 ,
[97]
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[]\T1/pcr/b/n/10 **school_mixing_type \T1/ptm/m/n/10 (\T1/pcr/m/sl/10 str\T1/pt
m/m/n/10 ) ^^U the mix-ing type of the school, `ran-
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[]\T1/ptm/m/it/10 clid=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 stu-dent_uids=array
([]\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dtype=int64)\T1/ptm/m/n/10 , \T1/ptm/m/it/1
0 teacher_uids=array([]\T1/ptm/m/n/10 ,
[99] [100] [101] [102]
Chapter 7.
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[]\T1/pcr/m/n/10 generate_larger_households_fixed_ages()
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